Result

Search results for the GEO ID: GSE9437

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM239767

GPL570

LCL721.45 (TAP1/2 +/+)

LCL721.45

human B-LCL, TAP expressing, HLA-typing: A*02, B*51

Karathas, PNAS 1980,77:4251

Sample_geo_accession	GSM239767
Sample_status	Public on Oct 27 2007
Sample_submission_date	Oct 26 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	cells (gwoing in log-phase) were centrifuged, the pellet was directly lysed in Trizol.
Sample_growth_protocol_ch1	suspension cells grown in RPMI + 10%FCS, split 1:5 every 3-4 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
Sample_data_processing	Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/ technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
Sample_platform_id	GPL570
Sample_contact_name	Andreas,Oliver,Weinzierl
Sample_contact_email	andi.weinzierl@web.de
Sample_contact_phone	004970712987647
Sample_contact_fax	00497071295653
Sample_contact_laboratory	Rammensee
Sample_contact_department	Department of Immunology
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Auf der Morgenstelle 15
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239767/suppl/GSM239767.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239767/suppl/GSM239767.CHP.gz
Sample_series_id	GSE9437
Sample_data_row_count	54675

GSM239768

GPL570

LCL721.174 (TAP1/2 -/-)

LCL721.174

human B-LCL, TAP deficient HLA-typing: A*02, B*51

Salter, Immunogenetic 1985,21:235

Sample_geo_accession	GSM239768
Sample_status	Public on Oct 27 2007
Sample_submission_date	Oct 26 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	cells (gwoing in log-phase) were centrifuged, the pellet was directly lysed in Trizol.
Sample_growth_protocol_ch1	suspension cells grown in RPMI + 10%FCS, split 1:5 every 3-4 days
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
Sample_data_processing	Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/ technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
Sample_platform_id	GPL570
Sample_contact_name	Andreas,Oliver,Weinzierl
Sample_contact_email	andi.weinzierl@web.de
Sample_contact_phone	004970712987647
Sample_contact_fax	00497071295653
Sample_contact_laboratory	Rammensee
Sample_contact_department	Department of Immunology
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Auf der Morgenstelle 15
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239768/suppl/GSM239768.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM239nnn/GSM239768/suppl/GSM239768.CHP.gz
Sample_series_id	GSE9437
Sample_data_row_count	54675

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